Rh5AG353500

transposition, RNA-mediated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0014977
Physical Location & Seq
Forward (+)
58439829 .. 58441986
2158 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG353500.1

Sequence Viewer

Length: 627 bp
ATGAACTTTCCTTTTTGTCAACCGAGTACATACCATCAAAAATTCAAGACATGTGTTATGAATGCAAATATGGATTGCGAAAAATGTAGGTTAAAAGTCTATGAAGTCGTGATCAATGTCTATGGTGCTTATTCAATAGACATAGATGCAGAACAATCGATGGTAAAAGTTTCAGGCAAAGTAAATCCAAAGATAATTCTACAGGTGCTTGGAGGGAAACATGCCAAGGTAAAAAGTGTCAAGTTTGATAGTGAGGAACCGTCCATGGGGGGCGGTTATCCCCCTCCCCCTCCCCCTCCTCTTCCTCTTCCCCCATACGGAATGGGGCTGGGGCCCCATCCCTATTCCTATCCGAATGGAGGGCCATATGACTACCCCATGATGATGCCACCACTTCTGATGCTGCCACCATCACCACCACCACCACCACCATCAGTGGCAGCACAACCTCAACAAAAACCAACATTACTATTAGAAGCACCACCCCAGAATTCGGGGGCCACAGCACAACCACAAAATTCAGGAACGTCAGCACCACCAACCACTAATGTTGCAGAGGAGGCAGTGATACCCTCAGATAAGAAGTCTAAGCGTTGCGGCATCGTCAAGAATTGCAGCATTATGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
HMA

Protein Analysis

208

Amino Acids

22.37

Weight (kDa)

8.66

Isoelectric Point (pI)

51.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HMA PF00403 22 - 65 4.8e-06 Heavy-metal-associated domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0014977)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G13140
fragaria_vesca FvH4_3g29421
malus_domestica MD03G1184600.v1.1 MD03G1184800.v1.1 MD11G1201200.v1.1
prunus_persica Prupe.4G241700_v2.0.a1 Prupe.5G052600_v2.0.a1
pyrus_communis pycom11g17370
rosa_chinensis RchiOBHm_Chr5g0053851
rosa_multiflora Rmu_sc0001759.1_g000008
rosa_roxburghii Rroxscaffold_1G00026750
rosa_samantha Rh5AG353500 Rh5BG365100 Rh5CG390200
rosa_wichuraiana Rw0G002130 Rw0G009540

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 273, 597
AcsI RAATTY 3 cut(s) 41, 490, 517
AfaI GTAC 1 cut(s) 28
AfiI CCNNNNNNNGG 4 cut(s) 266, 317, 359, 493
AflIII ACRYGT 1 cut(s) 50
AgsI TTSAA 2 cut(s) 46, 135
AoxI GGCC 3 cut(s) 332, 362, 498
ApaI GGGCCC 1 cut(s) 336
ApeKI GCWGC 3 cut(s) 403, 440, 615
ApoI RAATTY 3 cut(s) 41, 490, 517
AspS9I GGNCC 4 cut(s) 332, 333, 362, 498
AsuHPI GGTGA 1 cut(s) 405
BaeGI GKGCMC 1 cut(s) 336
BanII GRGCYC 1 cut(s) 336
BbvI GCAGC 2 cut(s) 390, 452
BccI CCATC 5 cut(s) 42, 154, 345, 418, 439
BcgI CGANNNNNNTGC 2 cut(s) 138, 172
BclI TGATCA 1 cut(s) 111
BfmI CTRYAG 1 cut(s) 200
BisI GCNGC 4 cut(s) 404, 441, 598, 616
BlsI GCNGC 4 cut(s) 405, 442, 599, 617
BmgT120I GGNCC 4 cut(s) 332, 333, 362, 498
BmiI GGNNCC 5 cut(s) 258, 333, 334, 335, 499
BmsI GCATC 4 cut(s) 136, 375, 390, 609
Bsa29I ATCGAT 1 cut(s) 158
BsaJI CCNNGG 2 cut(s) 225, 264
Bsc4I CCNNNNNNNGG 4 cut(s) 266, 317, 359, 493
BseCI ATCGAT 1 cut(s) 158
BseDI CCNNGG 2 cut(s) 225, 264
BseGI GGATG 1 cut(s) 337
BseLI CCNNNNNNNGG 4 cut(s) 266, 317, 359, 493
BseMII CTCAG 1 cut(s) 588
BseRI GAGGAG 2 cut(s) 288, 572
BseSI GKGCMC 1 cut(s) 336
BseXI GCAGC 2 cut(s) 390, 452
BseYI CCCAGC 1 cut(s) 328
BshFI GGCC 3 cut(s) 334, 364, 500
BshVI ATCGAT 1 cut(s) 158
BslI CCNNNNNNNGG 4 cut(s) 266, 317, 359, 493
BsmI GAATGC 1 cut(s) 67
BsnI GGCC 3 cut(s) 334, 364, 500
Bsp120I GGGCCC 1 cut(s) 332
Bsp1286I GDGCHC 1 cut(s) 336
Bsp143I GATC 1 cut(s) 111
Bsp19I CCATGG 1 cut(s) 264
BspACI CCGC 2 cut(s) 273, 597
BspANI GGCC 3 cut(s) 334, 364, 500
BspCNI CTCAG 1 cut(s) 587
BspDI ATCGAT 1 cut(s) 158
BspLI GGNNCC 5 cut(s) 258, 333, 334, 335, 499
BssECI CCNNGG 2 cut(s) 225, 264
BssMI GATC 1 cut(s) 111
BssT1I CCWWGG 2 cut(s) 225, 264
Bst4CI ACNGT 1 cut(s) 261
Bst6I CTCTTC 2 cut(s) 306, 312
BstDEI CTNAG 2 cut(s) 574, 588
BstDSI CCRYGG 1 cut(s) 264
BstF5I GGATG 1 cut(s) 337
BstKTI GATC 1 cut(s) 114
BstMBI GATC 1 cut(s) 111
BstMWI GCNNNNNNNGC 1 cut(s) 560
BstNSI RCATGY 2 cut(s) 54, 224
BstSFI CTRYAG 1 cut(s) 200
BstSLI GKGCMC 1 cut(s) 336
BstV1I GCAGC 2 cut(s) 390, 452
Bsu15I ATCGAT 1 cut(s) 158
BsuRI GGCC 3 cut(s) 334, 364, 500
BsuTUI ATCGAT 1 cut(s) 158
BtgI CCRYGG 1 cut(s) 264
BtsCI GGATG 1 cut(s) 337
BtsI GCAGTG 1 cut(s) 570
BtsIMutI CAGTG 2 cut(s) 441, 570
Cfr13I GGNCC 4 cut(s) 332, 333, 362, 498
ClaI ATCGAT 1 cut(s) 158
Csp6I GTAC 1 cut(s) 27
CspCI CAANNNNNGTGG 2 cut(s) 532, 567
CviAII CATG 4 cut(s) 51, 221, 265, 379
CviJI RGCY 4 cut(s) 328, 334, 364, 500
CviKI_1 RGCY 4 cut(s) 328, 334, 364, 500
CviQI GTAC 1 cut(s) 27
DdeI CTNAG 2 cut(s) 574, 588
DpnI GATC 1 cut(s) 113
DpnII GATC 1 cut(s) 111
Eam1104I CTCTTC 2 cut(s) 306, 312
EarI CTCTTC 2 cut(s) 306, 312
Eco130I CCWWGG 2 cut(s) 225, 264
Eco24I GRGCYC 1 cut(s) 336
EcoO109I RGGNCCY 2 cut(s) 332, 333
EcoRI GAATTC 1 cut(s) 490
EcoT14I CCWWGG 2 cut(s) 225, 264
EcoT38I GRGCYC 1 cut(s) 336
ErhI CCWWGG 2 cut(s) 225, 264
FaeI CATG 4 cut(s) 54, 224, 268, 382
FatI CATG 4 cut(s) 50, 220, 264, 378
FauNDI CATATG 1 cut(s) 367
FbaI TGATCA 1 cut(s) 111
Fnu4HI GCNGC 4 cut(s) 404, 441, 598, 616
FokI GGATG 1 cut(s) 324
FriOI GRGCYC 1 cut(s) 336
Fsp4HI GCNGC 4 cut(s) 404, 441, 598, 616
GluI GCNGC 4 cut(s) 404, 441, 598, 616
GsaI CCCAGC 1 cut(s) 332
HaeIII GGCC 3 cut(s) 334, 364, 500
Hin1II CATG 4 cut(s) 54, 224, 268, 382
HincII GTYRAC 1 cut(s) 20
HindII GTYRAC 1 cut(s) 20
HphI GGTGA 1 cut(s) 405
Hpy166II GTNNAC 1 cut(s) 20
Hpy188I TCNGA 3 cut(s) 354, 399, 577
Hpy188III TCNNGA 4 cut(s) 46, 109, 522, 607
Hpy8I GTNNAC 1 cut(s) 20
HpyCH4III ACNGT 1 cut(s) 261
HpyCH4IV ACGT 1 cut(s) 527
HpyCH4V TGCA 4 cut(s) 65, 149, 554, 615
HpyF10VI GCNNNNNNNGC 1 cut(s) 560
HpyF3I CTNAG 2 cut(s) 574, 588
HpySE526I ACGT 1 cut(s) 527
Hsp92II CATG 4 cut(s) 54, 224, 268, 382
Ksp22I TGATCA 1 cut(s) 111
Kzo9I GATC 1 cut(s) 111
LpnPI CCDG 5 cut(s) 159, 188, 314, 500, 507
Lsp1109I GCAGC 2 cut(s) 390, 452
LweI GCATC 4 cut(s) 136, 375, 390, 609
MaeII ACGT 1 cut(s) 527
MalI GATC 1 cut(s) 113
MboI GATC 1 cut(s) 111
MboII GAAGA 2 cut(s) 293, 299
MhlI GDGCHC 1 cut(s) 336
MluCI AATT 5 cut(s) 41, 195, 490, 517, 610
MseI TTAA 1 cut(s) 92
MslI CAYNNNNRTG 1 cut(s) 383
Mva1269I GAATGC 1 cut(s) 67
MwoI GCNNNNNNNGC 1 cut(s) 560
NcoI CCATGG 1 cut(s) 264
NdeI CATATG 1 cut(s) 367
NdeII GATC 1 cut(s) 111
NlaIII CATG 4 cut(s) 54, 224, 268, 382
NlaIV GGNNCC 5 cut(s) 258, 333, 334, 335, 499
NspI RCATGY 2 cut(s) 54, 224
PciI ACATGT 1 cut(s) 50
PctI GAATGC 1 cut(s) 67
PkrI GCNGC 4 cut(s) 405, 442, 599, 617
PscI ACATGT 1 cut(s) 50
PspFI CCCAGC 1 cut(s) 328
PspN4I GGNNCC 5 cut(s) 258, 333, 334, 335, 499
PspOMI GGGCCC 1 cut(s) 332
PspPI GGNCC 4 cut(s) 332, 333, 362, 498
RsaI GTAC 1 cut(s) 28
RsaNI GTAC 1 cut(s) 27
RseI CAYNNNNRTG 1 cut(s) 383
SaqAI TTAA 1 cut(s) 92
SatI GCNGC 4 cut(s) 404, 441, 598, 616
Sau3AI GATC 1 cut(s) 111
Sau96I GGNCC 4 cut(s) 332, 333, 362, 498
SduI GDGCHC 1 cut(s) 336
SetI ASST 5 cut(s) 92, 207, 231, 451, 530
SfaNI GCATC 4 cut(s) 136, 375, 390, 609
SfcI CTRYAG 1 cut(s) 200
SmiMI CAYNNNNRTG 1 cut(s) 383
Sse9I AATT 5 cut(s) 41, 195, 490, 517, 610
SsiI CCGC 2 cut(s) 273, 597
StyI CCWWGG 2 cut(s) 225, 264
TaaI ACNGT 1 cut(s) 261
TaiI ACGT 1 cut(s) 530
TaqI TCGA 1 cut(s) 158
TasI AATT 5 cut(s) 41, 195, 490, 517, 610
TatI WGTACW 1 cut(s) 26
TauI GCSGC 1 cut(s) 600
Tru1I TTAA 1 cut(s) 92
Tru9I TTAA 1 cut(s) 92
TscAI CASTG 2 cut(s) 441, 570
TseI GCWGC 3 cut(s) 403, 440, 615
TspDTI ATGAA 3 cut(s) 17, 74, 117
TspGWI ACGGA 1 cut(s) 333
TspRI CASTG 2 cut(s) 441, 570
XapI RAATTY 3 cut(s) 41, 490, 517
XceI RCATGY 2 cut(s) 54, 224
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.